Repository navigation
Add list of subjects that required manual corrections for t1 brain freesurfer analysis #175
Description
Following the closed and solved issues #115 and #126. We may add into the database a list of 112 scans that required manual corrections to get freeserfer (version 7.2) analysis accurate.
It may be called something like freesurfer.yml anf formatted folowwing the .yml file format.
@jcohenadad , @valosekj and @mbondy023, what do you think?
The subject/scan list is below:
sub-amu01
sub-amu02
sub-amu03
sub-amu05
sub-balgrist03
sub-beijingVerio02
sub-beijingVerio03
sub-beijingVerio04
sub-brnoCeitec01
sub-brnoCeitec03
sub-brnoCeitec05
sub-brnoUhb01
sub-brnoUhb02
sub-brnoUhb08
sub-cardiff01
sub-cardiff04
sub-cmrra01
sub-cmrra02
sub-cmrra03
sub-cmrra04
sub-cmrra05
sub-cmrra06
sub-cmrrb01
sub-cmrrb02
sub-cmrrb03
sub-cmrrb04
sub-cmrrb07
sub-fslAchieva03
sub-fslAchieva04
sub-fslAchieva05
sub-fslPrisma02
sub-fslPrisma05
sub-geneva01
sub-geneva02
sub-geneva06
sub-hamburg01
sub-hamburg05
sub-hamburg06
sub-juntendo750w03
sub-juntendo750w06
sub-mniS02
sub-mniS03
sub-mniS05
sub-mniS06
sub-mniS07
sub-mniS08
sub-mountSinai01
sub-mountSinai04
sub-mpicbs03
sub-mpicbs05
sub-nottwil02
sub-nottwil03
sub-nottwil04
sub-nottwil06
sub-nwu03
sub-nwu04
sub-nwu06
sub-oxfordFmrib01
sub-oxfordFmrib02
sub-oxfordFmrib03
sub-oxfordFmrib04
sub-oxfordFmrib05
sub-oxfordFmrib06
sub-oxfordFmrib07
sub-oxfordFmrib09
sub-oxfordFmrib10
sub-oxfordFmrib11
sub-oxfordOhba02
sub-oxfordOhba03
sub-oxfordOhba05
sub-pavia03
sub-pavia04
sub-perform01
sub-perform02
sub-perform04
sub-perform05
sub-perform06
sub-queensland03
sub-sherbrooke06
sub-stanford01
sub-stanford02
sub-stanford03
sub-stanford05
sub-stanford06
sub-strasbourg02
sub-strasbourg05
sub-strasbourg06
sub-tehranS05
sub-tokyo750w01
sub-tokyo750w07
sub-tokyoIngenia03
sub-tokyoSkyra01
sub-tokyoSkyra02
sub-ubc03
sub-ubc05
sub-ucl03
sub-ucl04
sub-unf01
sub-unf04
sub-unf05
sub-unf06
sub-unf07
sub-vallHebron01
sub-vallHebron02
sub-vallHebron03
sub-vallHebron05
sub-vallHebron07
sub-vuiisAchieva01
sub-vuiisAchieva02
sub-vuiisAchieva06
sub-vuiisIngenia03
sub-vuiisIngenia05
Activity
valosekj commentedon Jan 8, 2025
It would be great to upload the manually corrected label files for the 112 subjects under derivatives so people could reuse them in future analysis. For each file, an accompanying JSON sidecar could (should) be uploaded with details about the SW used to get the files (freeserfer 7.2) + info on who corrected the labels. An example of such a JSON sidecar can be found here. By doing so, we will not need the
freesurfer.yml, I guess.renelabounek commentedon Jan 8, 2025
I do not think that is the case of the freesurfer analysis. There is some mesh of surface-based control points, that is re-edited. @mbondy023 , can in some form upload the mesh edits that provides corrected segmentations in a way that anyone else after us can grab these files and get same volume and thickness numbers as we do?